Analysis of interatomic Contacts of Structural Units in PDB entry:
9VBJ

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 9VBJ entry

There are 4 chains in PDB entry 9VBJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 93	GLY 506
B	SER 93	GLY 506
C	SER 93	GLY 506
D	SER 93	GLY 506

There are 63 helices in PDB entry 9VBJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	118	129	Right-handed alpha
Helix 2	AA2	A	151	153	Right-handed 310
Helix 3	AA3	A	154	169	Right-handed alpha
Helix 4	AA4	A	188	197	Right-handed alpha
Helix 5	AA5	A	204	209	Right-handed alpha
Helix 6	AA6	A	234	239	Right-handed alpha
Helix 7	AA7	A	250	268	Right-handed alpha
Helix 8	AA8	A	295	299	Right-handed 310
Helix 9	AA9	A	309	313	Right-handed 310
Helix 10	AB1	A	319	331	Right-handed alpha
Helix 11	AB2	A	356	369	Right-handed alpha
Helix 12	AB3	A	386	396	Right-handed alpha
Helix 13	AB4	A	417	421	Right-handed 310
Helix 14	AB5	A	472	486	Right-handed alpha
Helix 15	AB6	B	118	129	Right-handed alpha
Helix 16	AB7	B	143	148	Right-handed alpha
Helix 17	AB8	B	151	153	Right-handed 310
Helix 18	AB9	B	154	169	Right-handed alpha
Helix 19	AC1	B	188	197	Right-handed alpha
Helix 20	AC2	B	204	210	Right-handed alpha
Helix 21	AC3	B	234	239	Right-handed alpha
Helix 22	AC4	B	250	268	Right-handed alpha
Helix 23	AC5	B	279	283	Right-handed 310
Helix 24	AC6	B	309	313	Right-handed 310
Helix 25	AC7	B	319	330	Right-handed alpha
Helix 26	AC8	B	356	368	Right-handed alpha
Helix 27	AC9	B	386	397	Right-handed alpha
Helix 28	AD1	B	398	403	Right-handed 310
Helix 29	AD2	B	446	452	Right-handed alpha
Helix 30	AD3	B	472	487	Right-handed alpha
Helix 31	AD4	C	118	129	Right-handed alpha
Helix 32	AD5	C	143	148	Right-handed alpha
Helix 33	AD6	C	151	153	Right-handed 310
Helix 34	AD7	C	154	169	Right-handed alpha
Helix 35	AD8	C	188	197	Right-handed alpha
Helix 36	AD9	C	204	210	Right-handed alpha
Helix 37	AE1	C	234	239	Right-handed alpha
Helix 38	AE2	C	250	268	Right-handed alpha
Helix 39	AE3	C	279	283	Right-handed 310
Helix 40	AE4	C	309	313	Right-handed 310
Helix 41	AE5	C	320	331	Right-handed alpha
Helix 42	AE6	C	356	369	Right-handed alpha
Helix 43	AE7	C	386	397	Right-handed alpha
Helix 44	AE8	C	399	403	Right-handed 310
Helix 45	AE9	C	446	452	Right-handed alpha
Helix 46	AF1	C	472	486	Right-handed alpha
Helix 47	AF2	D	118	129	Right-handed alpha
Helix 48	AF3	D	143	148	Right-handed alpha
Helix 49	AF4	D	151	153	Right-handed 310
Helix 50	AF5	D	154	169	Right-handed alpha
Helix 51	AF6	D	188	197	Right-handed alpha
Helix 52	AF7	D	204	209	Right-handed alpha
Helix 53	AF8	D	234	239	Right-handed alpha
Helix 54	AF9	D	251	268	Right-handed alpha
Helix 55	AG1	D	309	313	Right-handed 310
Helix 56	AG2	D	320	330	Right-handed alpha
Helix 57	AG3	D	356	369	Right-handed alpha
Helix 58	AG4	D	384	386	Right-handed 310
Helix 59	AG5	D	387	396	Right-handed alpha
Helix 60	AG6	D	397	398	Right-handed 310
Helix 61	AG7	D	399	403	Right-handed 310
Helix 62	AG8	D	446	452	Right-handed alpha
Helix 63	AG9	D	472	487	Right-handed alpha

There are 14 sheets in PDB entry 9VBJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5,

There are 8 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	116	117	first strand
Strand 2	A	95	101	parallel
Strand 3	A	242	248	anti-parallel
Strand 4	A	224	228	anti-parallel
Strand 5	A	217	220	anti-parallel
Strand 6	A	132	136	anti-parallel
Strand 7	A	173	179	parallel
Strand 8	A	199	203	parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	140	141	first strand
Strand 2	A	232	233	parallel

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There are 9 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	292	294	first strand
Strand 2	A	301	308	anti-parallel
Strand 3	A	455	462	anti-parallel
Strand 4	A	438	441	anti-parallel
Strand 5	A	431	433	anti-parallel
Strand 6	A	334	339	anti-parallel
Strand 7	A	372	378	parallel
Strand 8	A	406	411	parallel
Strand 9	A	490	492	anti-parallel

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There are 8 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	116	117	first strand
Strand 2	B	95	101	parallel
Strand 3	B	242	248	anti-parallel
Strand 4	B	224	228	anti-parallel
Strand 5	B	217	220	anti-parallel
Strand 6	B	132	137	anti-parallel
Strand 7	B	173	179	parallel
Strand 8	B	199	203	parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	140	141	first strand
Strand 2	B	232	233	parallel

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There are 9 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	292	296	first strand
Strand 2	B	299	308	anti-parallel
Strand 3	B	455	462	anti-parallel
Strand 4	B	438	441	anti-parallel
Strand 5	B	431	434	anti-parallel
Strand 6	B	334	339	anti-parallel
Strand 7	B	372	378	parallel
Strand 8	B	405	411	parallel
Strand 9	B	490	492	anti-parallel

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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	116	117	first strand
Strand 2	C	95	101	parallel
Strand 3	C	242	248	anti-parallel
Strand 4	C	224	228	anti-parallel
Strand 5	C	217	220	anti-parallel
Strand 6	C	132	137	anti-parallel
Strand 7	C	173	179	parallel
Strand 8	C	199	203	parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	140	141	first strand
Strand 2	C	232	233	parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	292	296	first strand
Strand 2	C	299	307	anti-parallel
Strand 3	C	318	319	parallel

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There are 9 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	292	296	first strand
Strand 2	C	299	307	anti-parallel
Strand 3	C	457	462	anti-parallel
Strand 4	C	438	441	anti-parallel
Strand 5	C	431	434	anti-parallel
Strand 6	C	334	339	anti-parallel
Strand 7	C	372	379	parallel
Strand 8	C	406	412	parallel
Strand 9	C	490	492	anti-parallel

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There are 8 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	116	117	first strand
Strand 2	D	95	101	parallel
Strand 3	D	242	248	anti-parallel
Strand 4	D	224	228	anti-parallel
Strand 5	D	217	220	anti-parallel
Strand 6	D	132	136	anti-parallel
Strand 7	D	173	179	parallel
Strand 8	D	199	203	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	140	141	first strand
Strand 2	D	232	233	parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	292	296	first strand
Strand 2	D	299	308	anti-parallel
Strand 3	D	318	319	parallel

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There are 9 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	292	296	first strand
Strand 2	D	299	308	anti-parallel
Strand 3	D	455	461	anti-parallel
Strand 4	D	438	441	anti-parallel
Strand 5	D	431	434	anti-parallel
Strand 6	D	334	339	anti-parallel
Strand 7	D	372	379	parallel
Strand 8	D	408	412	parallel
Strand 9	D	490	492	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 9VBJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
9VBJ